Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01006053.1 Corchorus olitorius cultivar O-4 contig06078, whole genome shotgun sequence

Parameters: 2 7 7 80 10 50 1000

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 655

Length: 1093
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35


Found at i:453 original size:17 final size:17

Alignment explanation


    Indices: 427--460  Score: 59
    Period size: 17  Copynumber: 2.0  Consensus size: 17

        417 TTAATTATTT

                             
        427 TAATCAAAAAATAATTA
          1 TAATCAAAAAATAATTA

                 *           
        444 TAATCTAAAAATAATTA
          1 TAATCAAAAAATAATTA

        461 AGAAAAGTAA


Statistics
Matches: 16,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  17   16  1.00

ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32


Consensus pattern (17 bp):   
TAATCAAAAAATAATTA

Found at i:1005 original size:26 final size:24

Alignment explanation


    Indices: 950--1014  Score: 67
    Period size: 24  Copynumber: 2.6  Consensus size: 24

        940 ATGAGTACCA

                  * *               
        950 ACCAAAGGCATACCGTAAACACCC
          1 ACCAAAAGTATACCGTAAACACCC

             *                        
        974 ATCAAAAGTATACCGTAAACACACCC
          1 ACCAAAAGTATACCGT-AA-ACACCC

                    *      
       1000 ACCAAATATTATACC
          1 ACCAAA-AGTATACC

       1015 CATGATCGGT


Statistics
Matches: 33,  Mismatches: 5, Indels: 3
        0.80            0.12        0.07

Matches are distributed among these distances:
  24   13  0.39
  25    2  0.06
  26   11  0.33
  27    7  0.21

ACGTcount: A:0.45, C:0.32, G:0.08, T:0.15


Consensus pattern (24 bp):   
ACCAAAAGTATACCGTAAACACCC
Done.